TB-Profiler result

Run: SRR14801895
Summary

Run ID: SRR14801895

Sample name:

Date: 03-04-2023 12:06:30

Number of reads: 3580078

Percentage reads mapped: 99.68

Strain: lineage4.3.3

Drug-resistance: Sensitive

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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family Main Spoligotype RDs Frequency
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.3 Euro-American (LAM) mainly-LAM None 0.99
lineage4.3.3 Euro-American (LAM) LAM;T RD115 0.98
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8040 p.Gly247Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576616 c.1269G>C synonymous_variant 0.18
rpoC 764367 p.Gly333Ala missense_variant 0.2
rpoC 764995 c.1626C>G synonymous_variant 0.98
rpoC 766966 p.Glu1199Asp missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 0.99
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303095 c.165G>A synonymous_variant 0.97
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473626 n.-32C>G upstream_gene_variant 0.18
rrl 1475453 n.1796T>A non_coding_transcript_exon_variant 0.13
rrl 1475911 n.2254T>C non_coding_transcript_exon_variant 0.11
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.12
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.15
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.12
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.12
rrl 1476221 n.2564T>C non_coding_transcript_exon_variant 0.12
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.12
fabG1 1673553 p.Asp38Glu missense_variant 0.19
rpsA 1834836 p.Met432Thr missense_variant 0.98
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2156196 c.-85C>T upstream_gene_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 0.97
folC 2746340 p.Ala420Val missense_variant 0.99
pepQ 2860159 p.Ala87Gly missense_variant 0.27
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339734 p.Ala206Gly missense_variant 0.47
fbiD 3339746 p.Ala210Gly missense_variant 0.2
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3878590 c.-83G>C upstream_gene_variant 0.29
rpoA 3878600 c.-93G>C upstream_gene_variant 0.29
rpoA 3878641 c.-134C>G upstream_gene_variant 0.4
clpC1 4038287 c.2418C>T synonymous_variant 0.98
clpC1 4038968 c.1737G>A synonymous_variant 0.98
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246527 p.Ala5Gly missense_variant 0.21
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0